Proteorhodopsin light-enhanced growth linked to vitamin-B1 acquisition in marine Flavobacteria

Proteorhodopsin from Dokdonia sp. PRO95 is a light-driven Na+-pump

(2015) Y. V. Bertsova et al.   BIOCHEMISTRY-MOSCOW

Vitamin B1 ecophysiology of marine picoeukaryotic algae: Strain-specific differences and a new role for bacteria in vitamin cycling

(2015) R. W. Paerl et al.   LIMNOLOGY AND OCEANOGRAPHY

De novo assembly of bacterial transcriptomes from RNA-seq data

(2015) Brian Tjaden   GENOME BIOLOGY

Discovery of a SAR11 growth requirement for thiamin’s pyrimidine precursor and its distribution in the Sargasso Sea

(2014) Paul Carini et al.   ISME Journal

Stimulation of growth by proteorhodopsin phototrophy involves regulation of central metabolic pathways in marine planktonic bacteria

(2014) J. Palovaara et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functional characterization of flavobacteria rhodopsins reveals a unique class of light-driven chloride pump in bacteria

(2014) S. Yoshizawa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ecology of marine Bacteroidetes: a comparative genomics approach

(2013) Beatriz Fernández-Gómez et al.   ISME Journal

Light-stimulated growth of proteorhodopsin-bearing sea-ice psychrophile Psychroflexus torquis is salinity dependent

(2013) Shi Feng et al.   ISME Journal

Genomics and Physiology of a Marine Flavobacterium Encoding a Proteorhodopsin and a Xanthorhodopsin-Like Protein

(2013) Thomas Riedel et al.   PLoS One

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Function and Regulation of Vibrio campbellii Proteorhodopsin: Acquired Phototrophy in a Classical Organoheterotroph

(2012) Zheng Wang et al.   PLoS One

Distribution and Functions of TonB-Dependent Transporters in Marine Bacteria and Environments: Implications for Dissolved Organic Matter Utilization

(2012) Kai Tang et al.   PLoS One

Multiple B-vitamin depletion in large areas of the coastal ocean

(2012) S. A. Sanudo-Wilhelmy et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Substrate-Controlled Succession of Marine Bacterioplankton Populations Induced by a Phytoplankton Bloom

(2012) H. Teeling et al.   SCIENCE

The Role of B Vitamins in Marine Biogeochemistry

(2011) Sergio A. Sañudo-Wilhelmy et al.   Annual Review of Marine Science

Genomics of the Proteorhodopsin-Containing Marine Flavobacterium Dokdonia sp. Strain MED134

(2011) José M. González et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Conveyor: a workflow engine for bioinformatic analyses

(2011) Burkhard Linke et al.   BIOINFORMATICS

Light-induced transcriptional responses associated with proteorhodopsin-enhanced growth in a marine flavobacterium

(2011) Hiroyuki Kimura et al.   ISME Journal

Transcriptional response of the photoheterotrophic marine bacterium Dinoroseobacter shibae to changing light regimes

(2011) Jürgen Tomasch et al.   ISME Journal

Energy Starved Candidatus Pelagibacter Ubique Substitutes Light-Mediated ATP Production for Endogenous Carbon Respiration

(2011) Laura Steindler et al.   PLoS One

Constitutive Expression of the Proteorhodopsin Gene by a Flavobacterium Strain Representative of the Proteorhodopsin-Producing Microbial Community in the North Sea

(2010) T. Riedel et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Most harmful algal bloom species are vitamin B1 and B12 auxotrophs

(2010) Y. Z. Tang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Influence of light and anoxia on chemiosmotic energy conservation in Dinoroseobacter shibae

(2010) Johannes Holert et al.   Environmental Microbiology Reports

Standard operating procedure for calculating genome-to-genome distances based on high-scoring segment pairs

(2010) Alexander F. Auch et al.   Standards in Genomic Sciences

Proteorhodopsin Phototrophy Promotes Survival of Marine Bacteria during Starvation

(2010) Laura Gómez-Consarnau et al.   PLOS BIOLOGY

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

The Structural and Biochemical Foundations of Thiamin Biosynthesis

(2009) Christopher T. Jurgenson et al.   Annual Review of Biochemistry

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast Mapping of Short Sequences with Mismatches, Insertions and Deletions Using Index Structures

(2009) Steve Hoffmann et al.   PLoS Computational Biology

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

The surprisingly diverse ways that prokaryotes move

(2008) Ken F. Jarrell et al.   NATURE REVIEWS MICROBIOLOGY

Genome analysis of the proteorhodopsin-containing marine bacterium Polaribacter sp. MED152 (Flavobacteria)

(2008) J. M. Gonzalez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA